# Survival analysis, including penalised likelihood.

## Documentation for package ‘survival’ version 2.36-12

- DESCRIPTION file.
- Overview of user guides and package vignettes; browse directory.

## Help Pages

A B C D E F H I J K L M N O P Q R S T U V misc

## -- A --

aareg | Aalen's additive regression model for censored data
aml | Acute Myelogenous Leukemia survival data
anova.coxph | Analysis of Deviance for a Cox model.
anova.coxphlist | Analysis of Deviance for a Cox model.
anova.survreg | Regression for a Parametric Survival Model
anova.survreglist | Regression for a Parametric Survival Model
as.character.Surv | Create a Survival Object
as.data.frame.Surv | Create a Survival Object
as.matrix.Surv | Create a Survival Object
attrassign | Create new-style "assign" attribute
attrassign.default | Create new-style "assign" attribute
attrassign.lm | Create new-style "assign" attribute

## -- B --

basehaz | Compute the baseline survival curve for a Cox model
bladder | Bladder Cancer Recurrences
bladder1 | Bladder Cancer Recurrences
bladder2 | Bladder Cancer Recurrences

## -- C --

cancer | NCCTG Lung Cancer Data
cch | Fits proportional hazards regression model to case-cohort data
cgd | Chronic Granulotomous Disease data
clogit | Conditional logistic regression
cluster | Identify clusters.
colon | Chemotherapy for Stage B/C colon cancer
cox.zph | Test the Proportional Hazards Assumption of a Cox Regression
coxph | Fit Proportional Hazards Regression Model
coxph.control | Ancillary arguments for controling coxph fits
coxph.detail | Details of a Cox Model Fit
coxph.getdata | Fit Proportional Hazards Regression Model
coxph.object | Proportional Hazards Regression Object
coxph.penalty | Fit Proportional Hazards Regression Model

## -- D --

dsurvreg | Distributions available in survreg.

## -- E --

extractAIC.coxph.penal | Proportional Hazards Regression Object

## -- F --

format.Surv | Create a Survival Object
frailty | Random effects terms
frailty.gamma | Random effects terms
frailty.gaussian | Random effects terms
frailty.t | Random effects terms

## -- H --

heart | Stanford Heart Transplant data

## -- I --

is.na.ratetable | Ratetable reference in formula
is.na.Surv | Create a Survival Object
is.ratetable | Verify that an object is of class ratetable.
is.Surv | Create a Survival Object

## -- J --

jasa | Stanford Heart Transplant data
jasa1 | Stanford Heart Transplant data

## -- K --

kidney | Kidney catheter data

## -- L --

labels.survreg | Regression for a Parametric Survival Model
leukemia | Acute Myelogenous Leukemia survival data
lines.survfit | Add Lines or Points to a Survival Plot
logan | Data from the 1972-78 GSS data used by Logan
lung | NCCTG Lung Cancer Data

## -- M --

Math.ratetable | Verify that an object is of class ratetable.
Math.Surv | Create a Survival Object
mgus | Monoclonal gammapothy data
mgus1 | Monoclonal gammapothy data
mgus2 | Monoclonal gammapothy data
model.frame.coxph | Model.frame method for coxph objects
model.frame.survreg | Regression for a Parametric Survival Model
model.matrix.coxph | Model.matrix method for coxph models

## -- N --

nwtco | Data from the National Wilm's Tumor Study

## -- O --

Ops.ratetable | Verify that an object is of class ratetable.
Ops.Surv | Create a Survival Object
ovarian | Ovarian Cancer Survival Data

## -- P --

pbc | Mayo Clinic Primary Biliary Cirrhosis Data
pbcseq | Mayo Clinic Primary Biliary Cirrhosis, sequential data
plot.aareg | Plot an aareg object.
plot.cox.zph | Graphical Test of Proportional Hazards
plot.survfit | Plot Method for 'survfit'
points.survfit | Add Lines or Points to a Survival Plot
predict.coxph | Predictions for a Cox model
predict.coxph.penal | Predictions for a Cox model
predict.survreg | Predicted Values for a 'survreg' Object
predict.survreg.penal | Predicted Values for a 'survreg' Object
print.aareg | Print an aareg object
print.cox.zph | Test the Proportional Hazards Assumption of a Cox Regression
print.coxph | Proportional Hazards Regression Object
print.coxph.null | Fit Proportional Hazards Regression Model
print.coxph.penal | Fit Proportional Hazards Regression Model
print.ratetable | Ratetable reference in formula
print.summary.coxph | Print method for summary.coxph objects
print.summary.survexp | Print Survexp Summary
print.summary.survfit | Print Survfit Summary
print.summary.survreg | Regression for a Parametric Survival Model
print.Surv | Create a Survival Object
print.survdiff | Test Survival Curve Differences
print.survexp | Compute Expected Survival
print.survfit | Print a Short Summary of a Survival Curve
print.survreg | Parametric Survival Model Object
print.survreg.penal | Regression for a Parametric Survival Model
pspline | Smoothing splines using a pspline basis
psplineinverse | Smoothing splines using a pspline basis
psurvreg | Distributions available in survreg.
pyears | Person Years

## -- Q --

qsurvreg | Distributions available in survreg.
quantile.survfit | Quantiles from a survfit object

## -- R --

ratetable | Ratetable reference in formula
ratetableDate | Convert date objects to ratetable form
rats | Rat data from Gail et al.
residuals.coxph | Calculate Residuals for a 'coxph' Fit
residuals.coxph.null | Calculate Residuals for a 'coxph' Fit
residuals.coxph.penal | Calculate Residuals for a 'coxph' Fit
residuals.survreg | Compute Residuals for 'survreg' Objects
residuals.survreg.penal | Compute Residuals for 'survreg' Objects
ridge | Ridge regression

## -- S --

stanford2 | More Stanford Heart Transplant data
strata | Identify Stratification Variables
summary.aareg | Summarize an aareg fit
summary.coxph | Summary method for Cox models
summary.coxph.penal | Fit Proportional Hazards Regression Model
summary.ratetable | Ratetable reference in formula
Summary.Surv | Create a Survival Object
summary.survexp | Summary function for a survexp object
summary.survfit | Summary of a Survival Curve
summary.survreg | Parametric Survival Model Object
Surv | Create a Survival Object
survConcordance | Compute a concordance measure.
survdiff | Test Survival Curve Differences
survexp | Compute Expected Survival
survexp.az | Census Data Sets for the Expected Survival and Person Years Functions
survexp.azr | Census Data Sets for the Expected Survival and Person Years Functions
survexp.fit | Compute Expected Survival
survexp.fl | Census Data Sets for the Expected Survival and Person Years Functions
survexp.flr | Census Data Sets for the Expected Survival and Person Years Functions
survexp.mn | Census Data Sets for the Expected Survival and Person Years Functions
survexp.mnwhite | Census Data Sets for the Expected Survival and Person Years Functions
survexp.us | Census Data Sets for the Expected Survival and Person Years Functions
survexp.usr | Census Data Sets for the Expected Survival and Person Years Functions
survexp.wnc | Census Data Sets for the Expected Survival and Person Years Functions
survfit | Create survival curves
survfit.coxph | Compute a Survival Curve from a Cox model
survfit.formula | Compute a Survival Curve for Censored Data
survfit.object | Survival Curve Object
survfitcoxph.fit | A direct interface to the 'computational engine' of survfit.coxph
survobrien | O'Brien's Test for Association of a Single Variable with Survival
survReg | Regression for a Parametric Survival Model
survreg | Regression for a Parametric Survival Model
survreg.control | Package options for survreg and coxph
survreg.distributions | Parametric Survival Distributions
survreg.object | Parametric Survival Model Object
survregDtest | Verify a survreg distribution
survSplit | Split a survival data set at specified times

## -- T --

tcut | Factors for person-year calculations
tobin | Tobin's Tobit data
tt | Mark time tranform terms

## -- U --

untangle.specials | Help Process the 'specials' Argument of the 'terms' Function.

## -- V --

vcov.coxph | Fit Proportional Hazards Regression Model
vcov.survreg | Regression for a Parametric Survival Model
veteran | Veterans' Administration Lung Cancer study

## -- misc --

[.cox.zph | Test the Proportional Hazards Assumption of a Cox Regression
[.coxph.penalty | Fit Proportional Hazards Regression Model
[.ratetable | Ratetable reference in formula
[.ratetable2 | Ratetable reference in formula
[.Surv | Create a Survival Object
[.survfit | Compute a Survival Curve for Censored Data
[.tcut | Factors for person-year calculations